augur
https://github.com/nextstrain/augur
Python
Pipeline components for real-time phylodynamic analysis
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- Issues
- chore(deps): allow numpy v2
- Update pinned dependencies
- chore(deps): configure dependabot for pip deps
- augur curate rename: Add option to drop fields/columns
- Improve help output for augur curate subcommands
- transform-strain-name: build strain name by concatenating fields
- [export] format confidence values to save bytes
- Support numpy major version 2
- Extend `augur curate format-dates` to output date ranges
- Curate standard geolocation rules
- Docs
- Python not yet supported